#!/usr/bin/env python3 """Validate the standardized ANI-1x dataset package.""" from __future__ import annotations import argparse import hashlib import json from pathlib import Path import h5py EXPECTED_SPLITS = { "ANI1x_cc_DFT_rc5_train": 8, "ANI1x_cc_DFT_rc5_val": 8, "ANI1x_cc_DFT_rc5_test": 8, } EXPECTED_FILES = { "ANI1x_cc_DFT_rc5_statistics.json", "ani1x_cc_dft.xyz", "ani1x_train.xyz", "ani1x_test.xyz", } REQUIRED_SAMPLE_KEYS = ( "atomic_numbers", "cell", "pbc", "positions", "properties/energy", "properties/forces", ) def sha256_file(path: Path) -> str: h = hashlib.sha256() with path.open("rb") as f: for chunk in iter(lambda: f.read(1024 * 1024), b""): h.update(chunk) return h.hexdigest() def validate_h5(path: Path) -> None: with h5py.File(path, "r") as f: batches = sorted(f.keys()) if not batches: raise SystemExit(f"[FAIL] HDF5 无 batch: {path}") configs = sorted(f[batches[0]].keys()) if not configs: raise SystemExit(f"[FAIL] HDF5 batch 无 config: {path}") sample = f[batches[0]][configs[0]] for key in REQUIRED_SAMPLE_KEYS: if key not in sample: raise SystemExit(f"[FAIL] HDF5 缺少字段 {key}: {path}") atomic_numbers = sample["atomic_numbers"] positions = sample["positions"] forces = sample["properties/forces"] if atomic_numbers.dtype.kind not in ("i", "u"): raise SystemExit(f"[FAIL] atomic_numbers dtype 非整数: {path}") if positions.dtype.kind != "f" or positions.shape[-1] != 3: raise SystemExit(f"[FAIL] positions dtype/shape 异常: {path}") if forces.dtype.kind != "f" or forces.shape != positions.shape: raise SystemExit(f"[FAIL] forces dtype/shape 异常: {path}") def validate_checksum_manifest(dataset_root: Path, manifest_path: Path) -> None: if not manifest_path.exists(): raise SystemExit(f"[FAIL] 校验清单不存在: {manifest_path}") checked = 0 with manifest_path.open("r", encoding="utf-8") as f: for line in f: line = line.strip() if not line or line.startswith("#"): continue digest, rel = line.split(maxsplit=1) path = dataset_root / rel if not path.exists(): raise SystemExit(f"[FAIL] 清单文件不存在: {path}") actual = sha256_file(path) if actual != digest: raise SystemExit(f"[FAIL] SHA256 不一致: {rel}") checked += 1 if checked == 0: raise SystemExit("[FAIL] 校验清单为空") print(f"[OK] SHA256 清单验证通过: {checked} 个文件") def main() -> int: parser = argparse.ArgumentParser() parser.add_argument("--dataset-root", default="data/ani1x") parser.add_argument("--checksum-manifest", default="metadata/sha256_manifest.txt") args = parser.parse_args() repo_root = Path.cwd() dataset_root = Path(args.dataset_root) if not dataset_root.is_absolute(): dataset_root = repo_root / dataset_root checksum_manifest = Path(args.checksum_manifest) if not checksum_manifest.is_absolute(): checksum_manifest = repo_root / checksum_manifest if not dataset_root.exists(): raise SystemExit(f"[FAIL] 数据目录不存在: {dataset_root}") for rel in EXPECTED_FILES: path = dataset_root / rel if not path.exists(): raise SystemExit(f"[FAIL] 缺少文件: {path}") if path.stat().st_size <= 0: raise SystemExit(f"[FAIL] 文件为空: {path}") print(f"[OK] 文件存在: {rel}") stats_path = dataset_root / "ANI1x_cc_DFT_rc5_statistics.json" with stats_path.open("r", encoding="utf-8") as f: stats = json.load(f) for key in ("atomic_energies", "avg_num_neighbors", "mean", "std", "atomic_numbers", "r_max"): if key not in stats: raise SystemExit(f"[FAIL] statistics 缺少字段: {key}") print("[OK] statistics JSON 可读") for split, expected_count in EXPECTED_SPLITS.items(): split_dir = dataset_root / split h5_files = sorted(split_dir.glob("*.h5")) if len(h5_files) != expected_count: raise SystemExit(f"[FAIL] {split} 分片数异常: {len(h5_files)} != {expected_count}") validate_h5(h5_files[0]) print(f"[OK] {split}: {len(h5_files)} 个 h5 分片,样本结构可读") validate_checksum_manifest(dataset_root, checksum_manifest) print("[OK] ANI-1x 数据集读取验证通过") return 0 if __name__ == "__main__": raise SystemExit(main())